a collection of scripts for organising bacterial genomes by species
☆81Mar 18, 2022Updated 3 years ago
Alternatives and similar repositories for Bacsort
Users that are interested in Bacsort are comparing it to the libraries listed below
Sorting:
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆50Apr 16, 2024Updated last year
- A tool for removing redundant genomes from a set of assemblies☆79Sep 10, 2025Updated 5 months ago
- Pipeline for analysing intergenic regions in bacteria☆39Oct 25, 2019Updated 6 years ago
- Rapid determination of appropriate reference genomes.☆100Jan 22, 2025Updated last year
- Accurate, resource-frugal and deterministic DNA sequence classifier.☆36Feb 2, 2026Updated last month
- Paint genomes with taxa-specific k-mer probabilities☆15Apr 4, 2022Updated 3 years ago
- Histosketching Using Little Kmers☆56May 25, 2023Updated 2 years ago
- StrainEst - abundance estimation of strains☆20Jan 17, 2020Updated 6 years ago
- Application and Python module for average nucleotide identity analyses of microbes.☆217Jul 1, 2025Updated 8 months ago
- Build a partitioned pangenome graph from microbial genomes☆294Feb 25, 2026Updated last week
- Create a tree using Mash distances☆182Oct 24, 2023Updated 2 years ago
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆131Feb 26, 2024Updated 2 years ago
- A list of weak Bacterial assemblies in GenBank☆18Aug 3, 2017Updated 8 years ago
- De novo Extraction of Strains from MetAgeNomes☆72Jun 17, 2020Updated 5 years ago
- Kraken(2) database based on the GTDB project☆28Dec 20, 2018Updated 7 years ago
- PLSDB pipeline to collect bacterial plasmids from NCBI☆39Oct 23, 2024Updated last year
- Genome comparison via de Bruijn graph. To get the latest stable version, please visit our site.☆69Oct 29, 2020Updated 5 years ago
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆124Aug 24, 2023Updated 2 years ago
- A toolbox for pangenome analysis and threshold evaluation.☆99Jul 8, 2022Updated 3 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆49Jan 14, 2026Updated last month
- C++ tools for NCBI taxonomy tasks☆12Jun 26, 2025Updated 8 months ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆236Oct 12, 2025Updated 4 months ago
- GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click…☆87Dec 15, 2024Updated last year
- A genomic minhashing implementation in Rust☆102Jun 17, 2025Updated 8 months ago
- CAMITAX: Taxon labels for microbial genomes☆31Dec 14, 2023Updated 2 years ago
- Get microbial sequence data easier and faster☆28Nov 7, 2019Updated 6 years ago
- ☆84Sep 13, 2023Updated 2 years ago
- Colinear block visualisation tool☆31Jan 17, 2024Updated 2 years ago
- Gene cluster comparison figure generator☆636Dec 22, 2025Updated 2 months ago
- ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads☆255Dec 13, 2025Updated 2 months ago
- Fast genome and metagenome distance estimation using MinHash☆435Sep 19, 2025Updated 5 months ago
- Scan contig files against PubMLST typing schemes☆267Jan 2, 2026Updated 2 months ago
- Metagenomic profiling and phylogenetic distances via common kmers☆42Jul 12, 2021Updated 4 years ago
- Benchmarking of long-read assembly tools for bacterial whole genomes☆170Mar 15, 2021Updated 4 years ago
- reference-based long read assemblies of bacterial genomes☆51Aug 9, 2021Updated 4 years ago
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- Visualization of the pan-genome output by panX☆67Jun 16, 2025Updated 8 months ago
- Scripts to analyze gene content and make a concatenated alignment of core genes from bacterial genomes.☆19Jul 20, 2018Updated 7 years ago
- Comprehensive resistance detection from WGS data☆19Feb 1, 2026Updated last month